Detection of SARS-CoV-2 variants in hospital wastewater in Peru, 2022
OBJECTIVE.: To identify the presence of the SARS-CoV-2 virus in wastewater from hospitals in Peru. MATERIALS AND METHODS.: Water samples were collected from the effluents of nine hospitals in Peru during March and September 2022. SARS-CoV-2 was identified by using Illumina sequencing. Variant, linea...
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2024
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| author | Marcos Carbajal, Pool Yareta Yareta, José Luis Otiniano Trujillo, Miguel Angel Galarza- Pérez, Marco Espinoza-Culupu, Abraham Ramirez-Melgar, Jorge L. Chambi-Quispe, Mario Luque Chipana, Nestor Alejandro Gutiérrez Ajalcriña, Rosmery Sucñer Cruz, Víctor López Chegne, Segundo Nicolas Santillán Ruiz, Diana Segura Chavez, Luis Felipe Sias Garay, Cinthia Esther Salazar‐Granara, Alberto Tsukayama Cisneros, Pablo Tapia‐Paniagua, Silvana González-Domenech, Carmen María |
| author_browse | Chambi-Quispe, Mario Espinoza-Culupu, Abraham Galarza- Pérez, Marco González-Domenech, Carmen María Gutiérrez Ajalcriña, Rosmery Luque Chipana, Nestor Alejandro López Chegne, Segundo Nicolas Marcos Carbajal, Pool Otiniano Trujillo, Miguel Angel Ramirez-Melgar, Jorge L. Salazar‐Granara, Alberto Santillán Ruiz, Diana Segura Chavez, Luis Felipe Sias Garay, Cinthia Esther Sucñer Cruz, Víctor Tapia‐Paniagua, Silvana Tsukayama Cisneros, Pablo Yareta Yareta, José Luis |
| author_facet | Marcos Carbajal, Pool Yareta Yareta, José Luis Otiniano Trujillo, Miguel Angel Galarza- Pérez, Marco Espinoza-Culupu, Abraham Ramirez-Melgar, Jorge L. Chambi-Quispe, Mario Luque Chipana, Nestor Alejandro Gutiérrez Ajalcriña, Rosmery Sucñer Cruz, Víctor López Chegne, Segundo Nicolas Santillán Ruiz, Diana Segura Chavez, Luis Felipe Sias Garay, Cinthia Esther Salazar‐Granara, Alberto Tsukayama Cisneros, Pablo Tapia‐Paniagua, Silvana González-Domenech, Carmen María |
| author_sort | Marcos Carbajal, Pool |
| collection | Producción científica |
| description | OBJECTIVE.: To identify the presence of the SARS-CoV-2 virus in wastewater from hospitals in Peru. MATERIALS AND METHODS.: Water samples were collected from the effluents of nine hospitals in Peru during March and September 2022. SARS-CoV-2 was identified by using Illumina sequencing. Variant, lineage and clade assignments were carried out using the Illumina and Nextclado tools. We verified whether the SARS-CoV-2 variants obtained from wastewater were similar to those reported by the National Institute of Health of Peru from patients during the same period and region. RESULTS.: Eighteen of the 20 hospital wastewater samples (90%) provided sequences of sufficient quality to be classified as the Omicron variant according to the WHO classification. Among them, six (30%) were assigned by Nextclade to clades 21K lineage BA.1.1 (n=1), 21L lineage BA.2 (n=2), and 22B lineages BA.5.1 (n=2) and BA .5.5 (n=1). CONCLUSIONS.: SARS-CoV-2 variants were found in hospital wastewater samples and were similar to those reported by the surveillance system in patients during the same weeks and geographic areas. Wastewater monitoring could provide information on the environmental and temporal variation of viruses such as SARS-CoV-2. Motivation for the study. To contribute to the surveillance of environmental samples from hospital effluents in order to achieve early warning of possible infectious disease outbreaks. Main findings. The Omicron variant of the COVID-19 virus was detected in wastewater from hospitals in Puno, Cuzco and Cajamarca; these results are similar to the reports by the Peruvian National Institute of Health based on nasopharyngeal swab samples. Implications. The presence of the Omicron variant in hospital wastewater during the third wave of the pandemic should raise awareness of the treatment system before wastewater is discharged into the public sewer system. |
| format | Article |
| id | oai:cris.upeu.edu.pe:20.500.15037/1135 |
| institution | UPeU |
| language | English |
| publishDate | 2024 |
| publishDateRange | 2024 |
| publishDateSort | 2024 |
| record_format | dspace |
| spelling | oai:cris.upeu.edu.pe:20.500.15037/11352026-11-02T12:57:04ZDetection of SARS-CoV-2 variants in hospital wastewater in Peru, 2022Marcos Carbajal, PoolYareta Yareta, José LuisOtiniano Trujillo, Miguel AngelGalarza- Pérez, MarcoEspinoza-Culupu, AbrahamRamirez-Melgar, Jorge L.Chambi-Quispe, MarioLuque Chipana, Nestor AlejandroGutiérrez Ajalcriña, RosmerySucñer Cruz, VíctorLópez Chegne, Segundo NicolasSantillán Ruiz, DianaSegura Chavez, Luis FelipeSias Garay, Cinthia EstherSalazar‐Granara, AlbertoTsukayama Cisneros, PabloTapia‐Paniagua, SilvanaGonzález-Domenech, Carmen Maríagenomicssars-cov-2wastewatersequencingwastewater-based epidemiological monitoringOBJECTIVE.: To identify the presence of the SARS-CoV-2 virus in wastewater from hospitals in Peru. MATERIALS AND METHODS.: Water samples were collected from the effluents of nine hospitals in Peru during March and September 2022. SARS-CoV-2 was identified by using Illumina sequencing. Variant, lineage and clade assignments were carried out using the Illumina and Nextclado tools. We verified whether the SARS-CoV-2 variants obtained from wastewater were similar to those reported by the National Institute of Health of Peru from patients during the same period and region. RESULTS.: Eighteen of the 20 hospital wastewater samples (90%) provided sequences of sufficient quality to be classified as the Omicron variant according to the WHO classification. Among them, six (30%) were assigned by Nextclade to clades 21K lineage BA.1.1 (n=1), 21L lineage BA.2 (n=2), and 22B lineages BA.5.1 (n=2) and BA .5.5 (n=1). CONCLUSIONS.: SARS-CoV-2 variants were found in hospital wastewater samples and were similar to those reported by the surveillance system in patients during the same weeks and geographic areas. Wastewater monitoring could provide information on the environmental and temporal variation of viruses such as SARS-CoV-2. Motivation for the study. To contribute to the surveillance of environmental samples from hospital effluents in order to achieve early warning of possible infectious disease outbreaks. Main findings. The Omicron variant of the COVID-19 virus was detected in wastewater from hospitals in Puno, Cuzco and Cajamarca; these results are similar to the reports by the Peruvian National Institute of Health based on nasopharyngeal swab samples. Implications. The presence of the Omicron variant in hospital wastewater during the third wave of the pandemic should raise awareness of the treatment system before wastewater is discharged into the public sewer system.Articlehttps://pubmed.ncbi.nlm.nih.gov/39166636https://rpmesp.ins.gob.pe/index.php/rpmesp/article/download/13484/5556https://doi.org/10.17843/rpmesp.2024.412.13484PMC1130069310.17843/rpmesp.2024.412.13484https://hdl.handle.net/20.500.15037/113539166636W4399879777enRevista Peruana de Medicina Experimental y Salud Pública1726-46341726-46422024-06-212026-06-13T09:47:17Z2026-06-13T09:47:17Z |
| spellingShingle | genomics sars-cov-2 wastewater sequencing wastewater-based epidemiological monitoring Marcos Carbajal, Pool Yareta Yareta, José Luis Otiniano Trujillo, Miguel Angel Galarza- Pérez, Marco Espinoza-Culupu, Abraham Ramirez-Melgar, Jorge L. Chambi-Quispe, Mario Luque Chipana, Nestor Alejandro Gutiérrez Ajalcriña, Rosmery Sucñer Cruz, Víctor López Chegne, Segundo Nicolas Santillán Ruiz, Diana Segura Chavez, Luis Felipe Sias Garay, Cinthia Esther Salazar‐Granara, Alberto Tsukayama Cisneros, Pablo Tapia‐Paniagua, Silvana González-Domenech, Carmen María Detection of SARS-CoV-2 variants in hospital wastewater in Peru, 2022 |
| title | Detection of SARS-CoV-2 variants in hospital wastewater in Peru, 2022 |
| title_full | Detection of SARS-CoV-2 variants in hospital wastewater in Peru, 2022 |
| title_fullStr | Detection of SARS-CoV-2 variants in hospital wastewater in Peru, 2022 |
| title_full_unstemmed | Detection of SARS-CoV-2 variants in hospital wastewater in Peru, 2022 |
| title_short | Detection of SARS-CoV-2 variants in hospital wastewater in Peru, 2022 |
| title_sort | detection of sars cov 2 variants in hospital wastewater in peru 2022 |
| topic | genomics sars-cov-2 wastewater sequencing wastewater-based epidemiological monitoring |
| topic_facet | genomics sars-cov-2 wastewater sequencing wastewater-based epidemiological monitoring |
| url | https://pubmed.ncbi.nlm.nih.gov/39166636 https://rpmesp.ins.gob.pe/index.php/rpmesp/article/download/13484/5556 https://doi.org/10.17843/rpmesp.2024.412.13484 https://hdl.handle.net/20.500.15037/1135 |
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